[Zowayix]

HP over the max has always been restored to max after using a Pokemon Center no matter which game, so I would assume so.

Supposing that this works, what I'm more interested in is the side effects that can be caused by it.
In Gen III, there were a huge number of side effects, most notably allowing genderless or male-only Pokemon to get their level-up moves in Little Cup. You could also cause numerous non-competitive-related glitches, including sending out a Bad Egg, sending out your opponent's Pokemon, glitching up the opponent's sprite, and even changing the nickname of your opponent's Pokemon.
In Gen IV, the side effects were limited to being able to send out index number #000 (actual name -----, often called "DPBox").

Of course, it would suck if Game Freak fixed it. But judging by their very shoddy attempts to "fix" (more like work around) it in previous generations, it's possible that they haven't done anything since B/W.